GgaINT0036842 @ galGal3
Intron Retention
Gene
ENSGALG00000002145 | CAMSAP2
Description
NA
Coordinates
chr8:1407290-1408177:-
Coord C1 exon
chr8:1408016-1408177
Coord A exon
chr8:1407374-1408015
Coord C2 exon
chr8:1407290-1407373
Length
642 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
ATAAGCTTTTTTGTCTCTAGGTA
3' ss Score
10.19
Exon sequences
Seq C1 exon
AGTGCTCATTTGGCTATGATCGATACTCTTATGATGGCGTATACCGTAGAGATGGTCAGCGTTGAGAAAGTGATTGCGTGCACTCAGCAGTATTCGTCTTTCTTCCAAGCGACGGATCTACCTTATGACATAGAGGATGCTGTCATGTTCTGGATAAACAAG
Seq A exon
GTATGAGCACTGGAAAAGCAAACCATGATTCTATTTGCAGTCTGTAAGTTTCTATTAGAGATGACTGGATAGGGATATGTATATACATAGGTGTATCTGACAGGGACTGTTCTTCATCTGCTGTTTGTGGGTAACGAAAAGAGAAGTTTGCAGAAATCAGTTAAACAAGTTAGGCAAACTAGATAAATGAGAAGCCTAAATAATAAAGGATAATGTGACTTGCATATGGCTCGTTAACAGTTGCTGTTGTGTTGAGATACCAGGTTGGCTGGTTGAGTGTCTCCTGTTGGCTGTGTTAAAAGAGCTGATTTCTTCTGTAATTTATCATGATCTGAAAGCCAAGTGTTCTGTTTGTATTGGAACGCATCTTGCTTGAGATTGTTTACCTTTACCACACAATCAAATCAAATGACAGCAATACAGCCCTAATCAAATGCAATCAAGCATAATAAAGGGCAGAGCTGTTAATACAGCATAAAGCTAAATATAAGTGACCTAGACTGCAGCTGGAATGTTGACATTTGCAGGTTACACTTCACAGCTATGGAATCAGAAATACCTGTTAAATTTACAGACCTTAAAAAAACTTGCTATTTCCCCAACTTGTTTCTTGGACCACAGAATAAGCTTTTTTGTCTCTAG
Seq C2 exon
GTAAATGAACATTTGAAAGACATAATGGAACAGGAACAAAAACTTAAAGAGCATCACAGTGCAGAATCTGCAGGAGGTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002145:ENSGALT00000003364:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.452
Domain overlap (PFAM):
C1:
PF0030726=CH=PU(5.7=16.7)
A:
NA
C2:
PF0030726=CH=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCTCATTTGGCTATGATCGA
R:
CTTCTGACCTCCTGCAGATTCTG
Band lengths:
246-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]